Carrasco Basilio, Arévalo Bárbara, Perez-Diaz Ricardo, Rodríguez-Alvarez Yohaily, Gebauer Marlene, Maldonado Jonathan E, García-Gonzáles Rolando, Chong-Pérez Borys, Pico-Mendoza José, Meisel Lee A, Ming Ray, Silva Herman
Centro de Estudios en Alimentos Procesados (CEAP), Talca 3480094, Chile.
Departamento de Ciencias Vegetales, Facultad de Agronomía e Ingeniería Forestal, Pontificia Universidad Católica de Chile, Santiago 7820436, Chile.
Plants (Basel). 2022 Aug 18;11(16):2151. doi: 10.3390/plants11162151.
A genotyping by sequencing (GBS) approach was used to analyze the organization of genetic diversity in V. pubescens and V. chilensis. GBS identified 4675 and 4451 SNPs/INDELs in two papaya species. The cultivated orchards of V. pubescens exhibited scarce genetic diversity and low but significant genetic differentiation. The neutrality test yielded a negative and significant result, suggesting that V. pubescens suffered a selective sweep or a rapid expansion after a bottleneck during domestication. In contrast, V. chilensis exhibited a high level of genetic diversity. The genetic differentiation among the populations was slight, but it was possible to distinguish the two genetic groups. The neutrality test indicated no evidence that natural selection and genetic drift affect the natural population of V. chilensis. Using the Carica papaya genome as a reference, we identified critical SNPs/INDELs associated with putative genes. Most of the identified genes are related to stress responses (salt and nematode) and vegetative and reproductive development. These results will be helpful for future breeding and conservation programs of the Caricaceae family.
采用简化基因组测序（GBS）方法分析了毛叶番木瓜和智利番木瓜的遗传多样性组织。GBS在两种番木瓜物种中分别鉴定出4675个和4451个单核苷酸多态性（SNP）/插入缺失（INDEL）。毛叶番木瓜的栽培果园显示出稀缺的遗传多样性以及低但显著的遗传分化。中性检验产生了负向且显著的结果，表明毛叶番木瓜在驯化过程中经历瓶颈后遭受了选择性清除或快速扩张。相比之下，智利番木瓜表现出高水平的遗传多样性。种群间的遗传分化轻微，但有可能区分出两个遗传组。中性检验表明没有证据显示自然选择和遗传漂变影响智利番木瓜的自然种群。以番木瓜基因组作为参考，我们鉴定出与推定基因相关的关键SNP/INDEL。大多数鉴定出的基因与胁迫响应（盐和线虫）以及营养和生殖发育有关。这些结果将有助于番木瓜科未来的育种和保护计划。
